Related papers: A High Quartets Distance Construction
We determine upper and lower bounds for the number of maximum matchings (i.e., matchings of maximum cardinality) $m(T)$ of a tree $T$ of given order. While the trees that attain the lower bound are easily characterised, the trees with…
The Robinson-Foulds (RF) distance is by far the most widely used measure of dissimilarity between trees. Although the distribution of these distances has been investigated for twenty years, an algorithm that is explicitly polynomial time…
Let T be a weighted tree with n numbered leaves and let D be its distance matrix, so D(i,j) is the distance between the leaves i and j. If m is an integer between 2 and n, we prove a tropical formula to compute the m-dissimilarity map of T…
We determine the maximum distance between any two of the center, centroid, and subtree core among trees with a given order. Corresponding results are obtained for trees with given maximum degree and also for trees with given diameter. The…
We discuss a notion of convergence for binary trees that is based on subtree sizes. In analogy to recent developments in the theory of graphs, posets and permutations we investigate some general aspects of the topology, such as a…
A vertex subset of a graph is called a distance-$k$ independent set if the distance between any two of its distinct vertices is at least $k + 1$. For all $n,k \geq 1$, we determine the minimum possible number of inclusion-wise maximal…
We consider the problem of constructing an an optimal-weight tree from the 3*(n choose 4) weighted quartet topologies on n objects, where optimality means that the summed weight of the embedded quartet topologiesis optimal (so it can be the…
We define a new balance index for rooted phylogenetic trees based on the symmetry of the evolutive history of every set of 4 leaves. This index makes sense for multifurcating trees and it can be computed in time linear in the number of…
We investigate pattern avoidance in permutations satisfying some additional restrictions. These are naturally considered in terms of avoiding patterns in linear extensions of certain forest-like partially ordered sets, which we call binary…
The unordered tree edit distance is a natural metric to compute distances between trees without intrinsic child order, such as representations of chemical molecules. While the unordered tree edit distance is MAX SNP-hard in principle, it is…
This extended abstract is dedicated to the analysis of the height of non-plane unlabelled rooted binary trees. The height of such a tree chosen uniformly among those of size $n$ is proved to have a limiting theta distribution, both in a…
Trees with labelled leaves and with all other vertices of degree three play an important role in systematic biology and other areas of classification. A classical combinatorial result ensures that such trees can be uniquely reconstructed…
In this paper we introduce and study three new measures for efficient discriminative comparison of phylogenetic trees. The NNI navigation dissimilarity $d_{nav}$ counts the steps along a "combing" of the Nearest Neighbor Interchange (NNI)…
We give a counterexample to the conjecture of Martin and Thatte that two balanced rooted binary leaf-labelled trees on $n$ leaves have a maximum agreement subtree (MAST) of size at least $n^{\frac{1}{2}}$. In particular, we show that for…
High order networks are weighted hypergraphs col- lecting relationships between elements of tuples, not necessarily pairs. Valid metric distances between high order networks have been defined but they are difficult to compute when the…
In this note we consider the bent linear 2-tree and provide an explicit formula for the resistance distance $r_{G_n}(1,n)$ between the first and last vertices of the graph. We call the graph $G_n$ with vertex set $V(G_n) = \{ 1, 2, \ldots,…
The subject of pattern avoiding permutations has its roots in computer science, namely in the problem of sorting a permutation through a stack. A formula for the number of permutations of length n that can be sorted by passing it twice…
We study the average height of random trees generated by leaf-centric binary tree sources as introduced by Zhang, Yang and Kieffer. A leaf-centric binary tree source induces for every $n \geq 2$ a probability distribution on the set of…
Binary jumbled pattern matching asks to preprocess a binary string $S$ in order to answer queries $(i,j)$ which ask for a substring of $S$ that is of length $i$ and has exactly $j$ 1-bits. This problem naturally generalizes to…
Dual-tree algorithms are a widely used class of branch-and-bound algorithms. Unfortunately, developing dual-tree algorithms for use with different trees and problems is often complex and burdensome. We introduce a four-part logical split:…